Meaning of the header in secondary structure of protein?
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3.1 years ago

I download Secondary Structure Files from https://www.rcsb.org/pdb/static.do?p=download/http/index.html#ss. I want to know what does it mean the letter after PDB code in the secondary structure(header)?

>102L:A:secstr
  HHHHHHHHH  EEEEEE TTS EEEETTEEEESSS TTTHHHHHHHHHHTS  TTB  HHHHHHHHHHHHHHH
HHHHHH TTHHHHHHHS HHHHHHHHHHHHHHHHHHHHT HHHHHHHHTT HHHHHHHHHSSHHHHHSHHHHHHH
HHHHHHSSSGGG

I mean the letter 'A' in this case. Thanks.

protein secondary structure PSSM • 892 views
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Help for secondary structure files is on this page.

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Thanks for your reply. I read this link and many others, but I did not get the answer.

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3.1 years ago
Ram 34k

PDB identifiers usually consist of the 4-length alphanumeric identifier and the protein chain. I'm guessing 102L is the PDB identifier and A is the protein chain.

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Thanks I appreciate your answer . I understand it can be the chain of the protein, but I was confused because some the secondary structure in the file has different chain of protein with the same PDB id.

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Yes, a protein can have multiple chains, and these chains can have different sequences of secondary structure elements.

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Thanks man. I really appreciate your answer .

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No problem - if the answer resolved your question, can you accept it please?

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